Cargando…

Expansions to the MGDrivE suite for simulating the efficacy of novel gene-drive constructs in the control of mosquito-borne diseases

OBJECTIVE: The MGDrivE (MGDrivE 1 and MGDrivE 2) modeling framework provides a flexible and expansive environment for testing the efficacy of novel gene-drive constructs for the control of mosquito-borne diseases. However, the existing model framework did not previously support several features nece...

Descripción completa

Detalles Bibliográficos
Autores principales: Bennett, Jared B., Wu, Sean L., Chennuri, Pratima R., Myles, Kevin M., Ndeffo-Mbah, Martial L.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10557238/
https://www.ncbi.nlm.nih.gov/pubmed/37798614
http://dx.doi.org/10.1186/s13104-023-06533-6
_version_ 1785117045220704256
author Bennett, Jared B.
Wu, Sean L.
Chennuri, Pratima R.
Myles, Kevin M.
Ndeffo-Mbah, Martial L.
author_facet Bennett, Jared B.
Wu, Sean L.
Chennuri, Pratima R.
Myles, Kevin M.
Ndeffo-Mbah, Martial L.
author_sort Bennett, Jared B.
collection PubMed
description OBJECTIVE: The MGDrivE (MGDrivE 1 and MGDrivE 2) modeling framework provides a flexible and expansive environment for testing the efficacy of novel gene-drive constructs for the control of mosquito-borne diseases. However, the existing model framework did not previously support several features necessary to simulate some types of intervention strategies. Namely, current MGDrivE versions do not permit modeling of small molecule inducible systems for controlling gene expression in gene drive designs or the inheritance patterns of self-eliminating gene drive mechanisms. RESULTS: Here, we demonstrate a new MGDrivE 2 module that permits the simulation of gene drive strategies incorporating small molecule-inducible systems and self-eliminating gene drive mechanisms. Additionally, we also implemented novel sparsity-aware sampling algorithms for improved computational efficiency in MGDrivE 2 and supplied an analysis and plotting function applicable to the outputs of MGDrivE 1 and MGDrivE 2.
format Online
Article
Text
id pubmed-10557238
institution National Center for Biotechnology Information
language English
publishDate 2023
publisher BioMed Central
record_format MEDLINE/PubMed
spelling pubmed-105572382023-10-07 Expansions to the MGDrivE suite for simulating the efficacy of novel gene-drive constructs in the control of mosquito-borne diseases Bennett, Jared B. Wu, Sean L. Chennuri, Pratima R. Myles, Kevin M. Ndeffo-Mbah, Martial L. BMC Res Notes Research Note OBJECTIVE: The MGDrivE (MGDrivE 1 and MGDrivE 2) modeling framework provides a flexible and expansive environment for testing the efficacy of novel gene-drive constructs for the control of mosquito-borne diseases. However, the existing model framework did not previously support several features necessary to simulate some types of intervention strategies. Namely, current MGDrivE versions do not permit modeling of small molecule inducible systems for controlling gene expression in gene drive designs or the inheritance patterns of self-eliminating gene drive mechanisms. RESULTS: Here, we demonstrate a new MGDrivE 2 module that permits the simulation of gene drive strategies incorporating small molecule-inducible systems and self-eliminating gene drive mechanisms. Additionally, we also implemented novel sparsity-aware sampling algorithms for improved computational efficiency in MGDrivE 2 and supplied an analysis and plotting function applicable to the outputs of MGDrivE 1 and MGDrivE 2. BioMed Central 2023-10-05 /pmc/articles/PMC10557238/ /pubmed/37798614 http://dx.doi.org/10.1186/s13104-023-06533-6 Text en © The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
spellingShingle Research Note
Bennett, Jared B.
Wu, Sean L.
Chennuri, Pratima R.
Myles, Kevin M.
Ndeffo-Mbah, Martial L.
Expansions to the MGDrivE suite for simulating the efficacy of novel gene-drive constructs in the control of mosquito-borne diseases
title Expansions to the MGDrivE suite for simulating the efficacy of novel gene-drive constructs in the control of mosquito-borne diseases
title_full Expansions to the MGDrivE suite for simulating the efficacy of novel gene-drive constructs in the control of mosquito-borne diseases
title_fullStr Expansions to the MGDrivE suite for simulating the efficacy of novel gene-drive constructs in the control of mosquito-borne diseases
title_full_unstemmed Expansions to the MGDrivE suite for simulating the efficacy of novel gene-drive constructs in the control of mosquito-borne diseases
title_short Expansions to the MGDrivE suite for simulating the efficacy of novel gene-drive constructs in the control of mosquito-borne diseases
title_sort expansions to the mgdrive suite for simulating the efficacy of novel gene-drive constructs in the control of mosquito-borne diseases
topic Research Note
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10557238/
https://www.ncbi.nlm.nih.gov/pubmed/37798614
http://dx.doi.org/10.1186/s13104-023-06533-6
work_keys_str_mv AT bennettjaredb expansionstothemgdrivesuiteforsimulatingtheefficacyofnovelgenedriveconstructsinthecontrolofmosquitobornediseases
AT wuseanl expansionstothemgdrivesuiteforsimulatingtheefficacyofnovelgenedriveconstructsinthecontrolofmosquitobornediseases
AT chennuripratimar expansionstothemgdrivesuiteforsimulatingtheefficacyofnovelgenedriveconstructsinthecontrolofmosquitobornediseases
AT myleskevinm expansionstothemgdrivesuiteforsimulatingtheefficacyofnovelgenedriveconstructsinthecontrolofmosquitobornediseases
AT ndeffombahmartiall expansionstothemgdrivesuiteforsimulatingtheefficacyofnovelgenedriveconstructsinthecontrolofmosquitobornediseases